Glutamate methyl ester? (or ethyl ester, which I'm not sure has ever been documented...hard to tell how many extra heavy atoms given the view direction in the image you supplied). Or the methyl/ethyl amides.
Dave
From: CCP4 bulletin board [mailto:[log in to unmask]] On Behalf Of Bosch, Juergen
Sent: Wednesday, 18 May 2011 14:06
To: [log in to unmask]
Subject: Re: [ccp4bb] unknown density
I take the lysine back, just realized wrong color coding it's an oxygen and not a nitrogen closer to the extra density :-)
Jürgen
On May 18, 2011, at 2:03 PM, Bosch, Juergen wrote:
But that's a lysine, so maybe a PTM ? Acetylated perhaps ?
Jürgen
On May 18, 2011, at 1:56 PM, Shiva Bhowmik wrote:
Hi Cedric,
I presume you collected the datset at a synchrtron source. It could be free radical generated due to X-ray radiation has modified the glutamate residues. I have seen this happening for Ser residues.
Cheers,
Shiva
On Wed, May 18, 2011 at 9:08 AM, cedric bauvois <[log in to unmask]<mailto:[log in to unmask]>> wrote:
Hi, everyone,
I am working on the refinement of a structure at about 1.4 Ang and found some clear extra density connected to a glutamate (see figure), but I don't know what it should be. The crystal came out from Tris-HCl buffer with peg600, and protein buffer contains sodium-phosphate.
Does anyone figure out what this density can be ?
Thanks for any help you can give.
Cédric
......................
Jürgen Bosch
Johns Hopkins Bloomberg School of Public Health
Department of Biochemistry & Molecular Biology
Johns Hopkins Malaria Research Institute
615 North Wolfe Street, W8708
Baltimore, MD 21205
Phone: +1-410-614-4742
Lab: +1-410-614-4894
Fax: +1-410-955-3655
http://web.mac.com/bosch_lab/
......................
Jürgen Bosch
Johns Hopkins Bloomberg School of Public Health
Department of Biochemistry & Molecular Biology
Johns Hopkins Malaria Research Institute
615 North Wolfe Street, W8708
Baltimore, MD 21205
Phone: +1-410-614-4742
Lab: +1-410-614-4894
Fax: +1-410-955-3655
http://web.mac.com/bosch_lab/
